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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 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'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $species_info = array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ) $local_species = 'aox' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $species_info = array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ) $local_species = 'aox' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 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'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 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'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 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'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 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'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 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'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 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'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 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'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 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'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 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'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 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'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 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'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 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'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 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'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 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'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $species_info = array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ) $local_species = 'sun' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $species_info = array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ) $local_species = 'sun' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 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'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $species_info = array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ) $local_species = 'sgi' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $species_info = array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ) $local_species = 'sgi' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 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'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 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'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 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'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ), 'gf_id' => 'HOM05D001074', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001074' ), 'data_identifier' => 'HOM05D001074', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001074', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p25520' => 'bna', 'A03p67940' => 'bna', 'A04p15140' => 'bna', 'A05p01580' => 'bna', 'A06p18490' => 'bna', 'A06p35110' => 'bna', 'A07p21100' => 'bna', 'Aa31LG11G3550' => 'aar', 'Aa31LG1G27610' => 'aar', 'Aa31LG4G17790' => 'aar', 'Aa31LG9G170' => 'aar', 'Actinidia08659' => 'ach', 'Actinidia10085' => 'ach', 'Actinidia20175' => 'ach', 'Actinidia20385' => 'ach', 'Actinidia22741' => 'ach', 'Actinidia27308' => 'ach', 'Actinidia34229' => 'ach', 'Ah.07g205520' => 'amhyb', 'Ah.13g070370' => 'amhyb', 'Ah.14g082200' => 'amhyb', 'AL4G45490' => 'aly', 'AL5G29020' => 'aly', 'AL6G35760' => 'aly', 'AL7G47130' => 'aly', 'Aqoxy2G00703' => 'aox', 'Aqoxy5G04248' => 'aox', 'Aqoxy7G00062' => 'aox', 'Aqoxy7G00223' => 'aox', 'Aqoxy7G01594' => 'aox', 'arahy.Tifrunner.gnm1.ann1.46HUUA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8QZ4J7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ADUU08' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3F4SL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B78934' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CKY9MA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H15T2B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HLJ790' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZEW0G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P34XNR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R3J4CK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T964H7' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X2DDWJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZB3FGH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZWJ0BK' => 'arhy', 'AT2G46225' => 'ath', 'AT3G49290' => 'ath', 'AT5G24310' => 'ath', 'AT5G42030' => 'ath', 'ATR0315G066' => 'atr', 'ATR0602G020' => 'atr', 'ATR1127G035' => 'atr', 'Atru.chr12.2240' => 'acertr', 'Atru.chr5.603' => 'acertr', 'Atru.chr7.1366' => 'acertr', 'Atru.chr9.1941' => 'acertr', 'AUR62002743' => 'cqu', 'AUR62002745' => 'cqu', 'AUR62004425' => 'cqu', 'AUR62006080' => 'cqu', 'AUR62007430' => 'cqu', 'AUR62010963' => 'cqu', 'AUR62019414' => 'cqu', 'AUR62021473' => 'cqu', 'AUR62022631' => 'cqu', 'BcaB01g00730' => 'bca', 'BcaB01g03234' => 'bca', 'BcaB02g07867' => 'bca', 'BcaB05g22315' => 'bca', 'BcaB06g27686' => 'bca', 'BcaC01g05090' => 'bca', 'BcaC02g08896' => 'bca', 'BcaC02g12505' => 'bca', 'BcaC02g12508' => 'bca', 'BcaC02g12703' => 'bca', 'BcaC04g21006' => 'bca', 'BcaC07g39398' => 'bca', 'BcaC08g44578' => 'bca', 'BcaNung01222' => 'bca', 'BcaNung05713' => 'bca', 'BolC2t07590H' => 'bol', 'BolC2t07873H' => 'bol', 'BolC3t15392H' => 'bol', 'BolC4t26523H' => 'bol', 'BolC5t29160H' => 'bol', 'BolC5t29161H' => 'bol', 'BolC6t37226H' => 'bol', 'BolC7t44872H' => 'bol', 'BolC8t50045H' => 'bol', 'BolC9t56503H' => 'bol', 'BraA01t02677Z' => 'bra', 'BraA03t11769Z' => 'bra', 'BraA04t17155Z' => 'bra', 'BraA05t19153Z' => 'bra', 'BraA06t24927Z' => 'bra', 'BraA06t26431Z' => 'bra', 'BraA07t29796Z' => 'bra', 'C02p14630' => 'bna', 'C03p30440' => 'bna', 'C03p45700' => 'bna', 'C03p78360' => 'bna', 'C04p01800' => 'bna', 'C04p49360' => 'bna', 'C06p07750' => 'bna', 'C06p15650' => 'bna', 'C06p20430' => 'bna', 'C06p31060' => 'bna', 'C07p18500' => 'bna', 'C07p43460' => 'bna', 'C08p14570' => 'bna', 'C08p24290' => 'bna', 'C09p36720' => 'bna', 'CAN.G1529.2' => 'can', 'CAN.G481.24' => 'can', 'CAN.G567.31' => 'can', 'CAN.G78.141' => 'can', 'CANSAT21G0449' => 'cansat', 'CANSAT21G0656' => 'cansat', 'CANSAT56G0659' => 'cansat', 'CANSAT56G4132' => 'cansat', 'CARHR141510' => 'chi', 'CARHR189190' => 'chi', 'CARHR212530' => 'chi', 'Carub.0004s2891' => 'cru', 'Carub.0005s1549' => 'cru', 'Carub.0006s2208' => 'cru', 'Carub.0007s3331' => 'cru', 'Ca_09480_v3' => 'car', 'Ca_12785_v3' => 'car', 'Ca_16718_v3' => 'car', 'Ca_25534_v3' => 'car', 'CBR_g19344' => 'cbr', 'CBR_g31162' => 'cbr', 'Cc02_g01400' => 'ccan', 'Cc02_g38740' => 'ccan', 'Cc06_g09880' => 'ccan', 'Cc08_g16380' => 'ccan', 'CDE02G1943' => 'cde', 'CDE04G2951' => 'cde', 'CDE08G1246' => 'cde', 'CDE08G1501' => 'cde', 'CDE08G1631' => 'cde', 'CDE09G0404' => 'cde', 'Cfa016241' => 'cfa', 'Ciclev10009168m.g' => 'ccl', 'Ciclev10021055m.g' => 'ccl', 'Ciclev10021371m.g' => 'ccl', 'Ciclev10021975m.g' => 'ccl', 'Ciclev10023724m.g' => 'ccl', 'CiPaw.01G069400' => 'cil', 'CiPaw.02G037000' => 'cil', 'CiPaw.03G229600' => 'cil', 'CiPaw.05G197800' => 'cil', 'CiPaw.06G045300' => 'cil', 'CiPaw.11G117300' => 'cil', 'ClCG05G001160' => 'cla', 'ClCG05G009010' => 'cla', 'COL.COLO4_06365' => 'col', 'COL.COLO4_10744' => 'col', 'COL.COLO4_16786' => 'col', 'Cpa.g.sc184.14' => 'cpa', 'Cpa.g.sc3.99' => 'cpa', 'Cpa.g.sc79.4' => 'cpa', 'CsaV3_1G024140' => 'csa', 'CsaV3_3G008500' => 'csa', 'CsaV3_3G019770' => 'csa', 'CSS0010942' => 'camsi', 'CSS0011311' => 'camsi', 'CSS0011363' => 'camsi', 'CSS0013614' => 'camsi', 'CSS0017815' => 'camsi', 'CSS0024412' => 'camsi', 'CSS0032668' => 'camsi', 'CSS0033877' => 'camsi', 'DCAR_006512' => 'dca', 'DCAR_006955' => 'dca', 'DCAR_008944' => 'dca', 'DCAR_008945' => 'dca', 'DCAR_010594' => 'dca', 'DCAR_012066' => 'dca', 'DCAR_020334' => 'dca', 'Dinv29266' => 'din', 'Dinv35344' => 'din', 'Dinv36651' => 'din', 'Dinv37499' => 'din', 'Dinv38811' => 'din', 'Dinv43877' => 'din', 'Duzib068G0581' => 'dzi', 'Duzib084G1329' => 'dzi', 'Duzib133G0681' => 'dzi', 'Duzib138G0527' => 'dzi', 'Duzib168G1874' => 'dzi', 'Duzib187G1421' => 'dzi', 'Duzib205G0639' => 'dzi', 'ECA232G2603' => 'eca', 'ECA233G1696' => 'eca', 'ECA236G0239' => 'eca', 'ECA240G1026' => 'eca', 'ECA240G2602' => 'eca', 'ECA240G2888' => 'eca', 'ECA246G2996' => 'eca', 'EL10Ac1g00338' => 'bvu', 'EL10Ac3g05268' => 'bvu', 'EL10Ac8g18449' => 'bvu', 'Eucgr.C01259' => 'egr', 'Eucgr.D02333' => 'egr', 'Eucgr.E00723' => 'egr', 'Eucgr.E00725' => 'egr', 'Eucgr.E00746' => 'egr', 'Eucgr.E00761' => 'egr', 'Eucgr.E00893' => 'egr', 'Eucgr.E00897' => 'egr', 'Eucgr.E00910' => 'egr', 'Eucgr.E00938' => 'egr', 'Eucgr.E00951' => 'egr', 'Eucgr.E00955' => 'egr', 'Eucgr.E00962' => 'egr', 'Eucgr.E01014' => 'egr', 'Eucgr.E01020' => 'egr', 'Eucgr.K00391' => 'egr', 'FAN01G0269' => 'fan', 'FAN01G2022' => 'fan', 'FAN01G2411' => 'fan', 'FAN03G0931' => 'fan', 'FAN03G2908' => 'fan', 'FAN04G3039' => 'fan', 'FAN06G1154' => 'fan', 'FAN06G1199' => 'fan', 'FAN06G3063' => 'fan', 'FAN08G3059' => 'fan', 'FAN10G1322' => 'fan', 'FAN10G3030' => 'fan', 'FAN10G3632' => 'fan', 'FAN10G3761' => 'fan', 'FAN13G1194' => 'fan', 'FAN18G2379' => 'fan', 'FAN19G3126' => 'fan', 'FAN23G0461' => 'fan', 'FvH4_1g04380' => 'fve', 'FvH4_5g11640' => 'fve', 'FvH4_7g15590' => 'fve', 'FvH4_7g31960' => 'fve', 'Glyma.03G254100' => 'gma', 'Glyma.04G234500' => 'gma', 'Glyma.05G123100' => 'gma', 'Glyma.05G230200' => 'gma', 'Glyma.06G130100' => 'gma', 'Glyma.07G062200' => 'gma', 'Glyma.07G085100' => 'gma', 'Glyma.08G037700' => 'gma', 'Glyma.09G191800' => 'gma', 'Glyma.14G138980' => 'gma', 'Glyma.16G030200' => 'gma', 'Glyma.19G251600' => 'gma', 'Gohir.A02G095600' => 'ghi', 'Gohir.A03G051700' => 'ghi', 'Gohir.A05G024200' => 'ghi', 'Gohir.A07G140650' => 'ghi', 'Gohir.A08G127000' => 'ghi', 'Gohir.A08G127066' => 'ghi', 'Gohir.A09G184800' => 'ghi', 'Gohir.A12G110000' => 'ghi', 'Gohir.A12G238300' => 'ghi', 'Gohir.A12G249100' => 'ghi', 'Gohir.D03G087800' => 'ghi', 'Gohir.D03G089400' => 'ghi', 'Gohir.D03G115500' => 'ghi', 'Gohir.D04G100550' => 'ghi', 'Gohir.D05G025700' => 'ghi', 'Gohir.D07G146000' => 'ghi', 'Gohir.D08G107420' => 'ghi', 'Gohir.D08G148400' => 'ghi', 'Gohir.D09G179700' => 'ghi', 'Gohir.D10G152550' => 'ghi', 'Gohir.D12G113000' => 'ghi', 'Gohir.D12G239400' => 'ghi', 'Gohir.D12G249900' => 'ghi', 'Gorai.001G045400' => 'gra', 'Gorai.001G158200' => 'gra', 'Gorai.003G072000' => 'gra', 'Gorai.003G074200' => 'gra', 'Gorai.003G121700' => 'gra', 'Gorai.004G093300' => 'gra', 'Gorai.004G154100' => 'gra', 'Gorai.004G208100' => 'gra', 'Gorai.006G201700' => 'gra', 'Gorai.008G122600' => 'gra', 'Gorai.008G256500' => 'gra', 'Gorai.008G268000' => 'gra', 'Gorai.009G025800' => 'gra', 'Gorai.009G403600' => 'gra', 'GSVIVG01015366001' => 'vvi', 'GSVIVG01019595001' => 'vvi', 'GSVIVG01027018001' => 'vvi', 'GSVIVG01038564001' => 'vvi', 'HanXRQChr02g0038221' => 'han', 'HanXRQChr03g0061661' => 'han', 'HanXRQChr03g0083741' => 'han', 'HanXRQChr04g0120631' => 'han', 'HanXRQChr05g0143131' => 'han', 'HanXRQChr05g0144191' => 'han', 'HanXRQChr06g0166951' => 'han', 'HanXRQChr07g0205121' => 'han', 'HanXRQChr15g0485711' => 'han', 'HanXRQChr17g0534651' => 'han', 'Haze_00199' => 'cav', 'Haze_15586' => 'cav', 'Haze_15592' => 'cav', 'Haze_25766' => 'cav', 'Hma1.2p1_0384F.1_g140770' => 'hma', 'Hma1.2p1_0440F.1_g153580' => 'hma', 'Hma1.2p1_1151F.1_g262006' => 'hma', 'Hma1.2p1_1507F.1_g287650' => 'hma', 'Hma1.2p1_3847F.1_g337710' => 'hma', 'HPP92_020198' => 'vpl', 'HPP92_021497' => 'vpl', 'HPP92_021523' => 'vpl', 'HPP92_023154' => 'vpl', 'Hund11651' => 'sun', 'Hund16680' => 'sun', 'Hund21010' => 'sun', 'Hund26217' => 'sun', 'Lalb_Chr05g0222971' => 'lal', 'Lalb_Chr08g0240151' => 'lal', 'Lalb_Chr10g0096551' => 'lal', 'Lalb_Chr11g0066971' => 'lal', 'Lalb_Chr17g0338921' => 'lal', 'Lalb_Chr22g0352711' => 'lal', 'Lj1C1019T4' => 'lonja', 'Lj1C1021T13' => 'lonja', 'Lj1g0022745' => 'lja', 'Lj1g0025836' => 'lja', 'Lj2g0011083' => 'lja', 'Lj3C903G13' => 'lonja', 'Lj3g0005915' => 'lja', 'Lj4g0020003' => 'lja', 'Lj8A204G65' => 'lonja', 'Lj8A623T17' => 'lonja', 'Lj9A594G58' => 'lonja', 'Lsat_1_v5_gn_3_12861' => 'lsa', 'Lsat_1_v5_gn_3_138481' => 'lsa', 'Lsat_1_v5_gn_7_2540' => 'lsa', 'Lsat_1_v5_gn_8_105080' => 'lsa', 'Lsat_1_v5_gn_8_5340' => 'lsa', 'Lsat_1_v5_gn_9_49760' => 'lsa', 'Manes.01G184800' => 'mes', 'Manes.01G251200' => 'mes', 'Manes.02G006800' => 'mes', 'Manes.03G022600' => 'mes', 'Manes.05G028000' => 'mes', 'Manes.05G190200' => 'mes', 'Manes.16G114100' => 'mes', 'Mapoly0024s0078' => 'mpo', 'MBI01_g15704_MAGBIO' => 'mbi', 'MBI01_g30753_MAGBIO' => 'mbi', 'MBI06_g36470_MAGBIO' => 'mbi', 'MBI06_g38101_MAGBIO' => 'mbi', 'MBI07_g13953_MAGBIO' => 'mbi', 'MBI07_g33355_MAGBIO' => 'mbi', 'MD01G1073200' => 'mdo', 'MD01G1222400' => 'mdo', 'MD02G1043600' => 'mdo', 'MD07G1129600' => 'mdo', 'MD07G1293000' => 'mdo', 'MD14G1132900' => 'mdo', 'MD15G1182100' => 'mdo', 'Medtr1g007880' => 'mtr', 'Medtr3g091760' => 'mtr', 'Medtr6g087680' => 'mtr', 'Medtr7g116710' => 'mtr', 'Medtr8g028410' => 'mtr', 'MELO3C006071.2' => 'cme', 'MELO3C008503.2' => 'cme', 'MELO3C024633.2' => 'cme', 'Migut.B01813' => 'egut', 'Migut.E00736' => 'egut', 'Migut.F00202' => 'egut', 'Migut.K00506' => 'egut', 'Migut.N01580' => 'egut', 'MSTRG.13736' => 'ama', 'MSTRG.17307' => 'ama', 'MSTRG.19578' => 'ama', 'MSTRG.24851' => 'ama', 'MSTRG.27020' => 'ama', 'MSTRG.28238' => 'ama', 'MSTRG.4829' => 'ama', 'MSTRG.8646' => 'ama', 'Nitab4.5_0000305g0390' => 'nta', 'Nitab4.5_0000548g0090' => 'nta', 'Nitab4.5_0002367g0060' => 'nta', 'Nitab4.5_0002793g0020' => 'nta', 'Nitab4.5_0002904g0010' => 'nta', 'Nitab4.5_0004391g0050' => 'nta', 'Nitab4.5_0004748g0040' => 'nta', 'Nitab4.5_0005514g0020' => 'nta', 'Nn1g00291' => 'nnu', 'Nn1g01745' => 'nnu', 'Nn2g11690' => 'nnu', 'Nn3g18080' => 'nnu', 'Nn3g18953' => 'nnu', 'Nn7g37325' => 'nnu', 'Oeu002244.1' => 'oeu', 'Oeu013560.1' => 'oeu', 'Oeu023661.1' => 'oeu', 'Oeu037054.1' => 'oeu', 'Oeu060993.1' => 'oeu', 'Os01g0236400' => 'osa', 'Os01g0551800' => 'osa', 'Os01g0622700' => 'osa', 'Os01g0760900' => 'osa', 'Os05g0585400' => 'osa', 'Peaxi162Scf00023g00012' => 'pax', 'Peaxi162Scf00074g00545' => 'pax', 'Peaxi162Scf00740g00137' => 'pax', 'Peaxi162Scf01254g00031' => 'pax', 'Peaxi162Scf01363g00024' => 'pax', 'PGR031G3047' => 'pgr', 'PGR042G1177' => 'pgr', 'PGR142G0617' => 'pgr', 'PGR142G1300' => 'pgr', 'PGSC0003DMG400000307' => 'stu', 'PGSC0003DMG400012258' => 'stu', 'PGSC0003DMG400018548' => 'stu', 'PGSC0003DMG401000076' => 'stu', 'Phvul.002G312400' => 'pvu', 'Phvul.004G164900' => 'pvu', 'Phvul.006G108900' => 'pvu', 'Phvul.009G051500' => 'pvu', 'Phvul.010G105800' => 'pvu', 'Potri.001G088100' => 'ptr', 'Potri.002G165900' => 'ptr', 'Potri.003G142800' => 'ptr', 'Potri.012G016900' => 'ptr', 'Potri.014G092300' => 'ptr', 'Potri.018G082600' => 'ptr', 'Pp3c14_140' => 'ppa', 'Pp3c9_18150' => 'ppa', 'Prupe.2G179600' => 'ppe', 'Prupe.2G312800' => 'ppe', 'Prupe.5G124400' => 'ppe', 'Prupe.7G233400' => 'ppe', 'Psat0s3396g0240' => 'psa', 'Psat1g043560' => 'psa', 'Psat3g005360' => 'psa', 'Psat4g157200' => 'psa', 'Psat5g076160' => 'psa', 'Psat6g034880' => 'psa', 'PSO063G2182' => 'pso', 'PSO063G3662' => 'pso', 'PSO135G0223' => 'pso', 'PSO135G0493' => 'pso', 'PSO170G0993' => 'pso', 'PSO170G5031' => 'pso', 'PSO384G3895' => 'pso', 'PSO384G4462' => 'pso', 'PSO566G0309' => 'pso', 'PSO782G4684' => 'pso', 'QL02p029619' => 'qlo', 'QL02p043542' => 'qlo', 'QL02p044079' => 'qlo', 'QL04p059019' => 'qlo', 'QL09p008639' => 'qlo', 'RcHm_v2.0_Chr1g0358271' => 'rch', 'RcHm_v2.0_Chr1g0381451' => 'rch', 'RcHm_v2.0_Chr1g0381461' => 'rch', 'RcHm_v2.0_Chr2g0090031' => 'rch', 'RcHm_v2.0_Chr7g0186151' => 'rch', 'Rhsim01G0100200' => 'rsi', 'Rhsim03G0209700' => 'rsi', 'Rhsim03G0209900' => 'rsi', 'Rhsim07G0009100' => 'rsi', 'Rhsim07G0080900' => 'rsi', 'Sabra03G0103400' => 'sbr', 'Sabra12G0015500' => 'sbr', 'Sabra14G0066900' => 'sbr', 'Sabra14G0067000' => 'sbr', 'Sabra18G0070400' => 'sbr', 'SalBow3G0380' => 'sbo', 'SalBow4G3282' => 'sbo', 'SalBow5G0712' => 'sbo', 'SalBow6G2372' => 'sbo', 'SalBow6G3134' => 'sbo', 'Sc08g0007610' => 'sci', 'Sc13g0009950' => 'sci', 'Sc23g0002450' => 'sci', 'Sed0019067' => 'sed', 'Sed0019891' => 'sed', 'Sed0020605' => 'sed', 'Sed0022811' => 'sed', 'SEGI_11825' => 'sgi', 'SEGI_20945' => 'sgi', 'SEGI_27709' => 'sgi', 'SEGI_34297' => 'sgi', 'SGA_v2.0_scaffold11G05699' => 'sas', 'SGA_v2.0_scaffold192G40530' => 'sas', 'SGA_v2.0_scaffold36G14290' => 'sas', 'SGA_v2.0_scaffold44G16811' => 'sas', 'SGA_v2.0_scaffold95G28799' => 'sas', 'SHI13342' => 'shi', 'SMO196G0134' => 'smo', 'Solyc01g095280.4' => 'sly', 'Solyc03g083030.3' => 'sly', 'Solyc08g082710.3' => 'sly', 'Solyc12g007160.2' => 'sly', 'Sopen01g039070' => 'spe', 'Sopen03g022840' => 'spe', 'Sopen08g030940' => 'spe', 'Sopen12g003150' => 'spe', 'Sp2g23040' => 'spa', 'Sp4g28270' => 'spa', 'Sp5g12810' => 'spa', 'Sp7g00090' => 'spa', 'TAR371G1026' => 'tar', 'TAR374G0241' => 'tar', 'TAR374G1588' => 'tar', 'TAR375G0153' => 'tar', 'TAR375G0579' => 'tar', 'TAR375G0931' => 'tar', 'TAR624G0851' => 'tar', 'TAR629G1652' => 'tar', 'TAR633G0488' => 'tar', 'TAR633G2150' => 'tar', 'TAR633G2202' => 'tar', 'TAR636G2195' => 'tar', 'TAR636G3335' => 'tar', 'THA.LOC104798904' => 'tha', 'THA.LOC104799075' => 'tha', 'THA.LOC104814934' => 'tha', 'THA.LOC104817326' => 'tha', 'THA.LOC104817529' => 'tha', 'Thecc.01G350200' => 'tca', 'Thecc.03G200600' => 'tca', 'Thecc.03G302400' => 'tca', 'Thecc.09G107700' => 'tca', 'Thhalv10001562m.g' => 'esa', 'Thhalv10004602m.g' => 'esa', 'Thhalv10010561m.g' => 'esa', 'Thhalv10027878m.g' => 'esa', 'Thhalv10028228m.g' => 'esa', 'TPR.G10047' => 'tpr', 'TPR.G11243' => 'tpr', 'TPR.G11254' => 'tpr', 'TPR.G12056' => 'tpr', 'TPR.G18150' => 'tpr', 'TPR.G18774' => 'tpr', 'TPR.G4789' => 'tpr', 'TWI14G0212' => 'twi', 'TWI14G1380' => 'twi', 'TWI34G0945' => 'twi', 'TWI39G0168' => 'twi', 'TWI59G0495' => 'twi', 'unitig_37.g11986' => 'ugi', 'unitig_52.g17716' => 'ugi', 'unitig_578.g16486' => 'ugi', 'unitig_8.g4991' => 'ugi', 'unitig_92.g28250' => 'ugi', 'vmacro06391' => 'vma', 'vmacro13216' => 'vma', 'vmacro13882' => 'vma', 'vmacro20715' => 'vma', 'vmacro20880' => 'vma', 'VMungo0251G1942' => 'vmu', 'VMungo0331G0120' => 'vmu', 'VMungo0464G0457' => 'vmu', 'VMungo0540G0598' => 'vmu', 'VMungo1309G0031' => 'vmu', 'Zm00001eb159520' => 'zma', 'Zm00001eb162480' => 'zma', 'Zm00001eb344890' => 'zma', 'Zm00001eb370490' => 'zma' ) $gf_id = 'HOM05D001074' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001074' ) $data_identifier = 'HOM05D001074' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 5, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 10, 'bra' => (int) 7, 'can' => (int) 4, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 3, 'cpa' => (int) 3, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 7, 'bvu' => (int) 3, 'egr' => (int) 16, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 23, 'gra' => (int) 14, 'vvi' => (int) 4, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 6, 'oeu' => (int) 5, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 5, 'rsi' => (int) 5, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 13, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb370490' $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